timing_above_threshold: Mean/first/last timing above/below threshold.

In LightLogR: Process Data from Wearable Light Loggers and Optical Radiation Dosimeters

Mean/first/last timing above/below threshold.

Description

This function calculates the mean, first, and last timepoint (MLiT, FLiT, LLiT) where light levels are above or below a given threshold intensity within the given time interval.

Usage

timing_above_threshold(
  Light.vector,
  Time.vector,
  comparison = c("above", "below"),
  threshold,
  na.rm = FALSE,
  as.df = FALSE
)

Arguments

Light.vector	Numeric vector containing the light data.
Time.vector	Vector containing the time data. Can be POSIXct, hms, duration, or difftime.
comparison	String specifying whether the time above or below threshold should be calculated. Can be either "above" (the default) or "below". If two values are provided for threshold, this argument will be ignored.
threshold	Single numeric value or two numeric values specifying the threshold light level(s) to compare with. If a vector with two values is provided, the timing corresponding to light levels between the two thresholds will be calculated.
na.rm	Logical. Should missing values be removed for the calculation? Defaults to FALSE.
as.df	Logical. Should a data frame be returned? If TRUE, a data frame with three columns (MLiT, FLiT, LLiT) and the threshold (e.g., ⁠MLiT_{threshold}⁠) will be returned. Defaults to FALSE.

Value

List or dataframe with the three values: mean, first, and last timing above threshold. The output type corresponds to the type of Time.vector, e.g., if Time.vector is HMS, the timing metrics will be also HMS, and vice versa for POSIXct and numeric.

References

Reid, K. J., Santostasi, G., Baron, K. G., Wilson, J., Kang, J., & Zee, P. C. (2014). Timing and Intensity of Light Correlate with Body Weight in Adults. PLOS ONE, 9(4), e92251. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1371/journal.pone.0092251")}

Hartmeyer, S.L., Andersen, M. (2023). Towards a framework for light-dosimetry studies: Quantification metrics. Lighting Research & Technology. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1177/14771535231170500")}

See Also

Other metrics: bright_dark_period(), centroidLE(), disparity_index(), dose(), duration_above_threshold(), exponential_moving_average(), frequency_crossing_threshold(), interdaily_stability(), intradaily_variability(), midpointCE(), nvRC(), nvRD(), nvRD_cumulative_response(), period_above_threshold(), pulses_above_threshold(), threshold_for_duration()

Examples

# Dataset with light > 250lx between 06:00 and 18:00
dataset1 <-
  tibble::tibble(
    Id = rep("A", 24),
    Datetime = lubridate::as_datetime(0) + lubridate::hours(0:23),
    MEDI = c(rep(1, 6), rep(250, 13), rep(1, 5))
  )

# Above threshold
dataset1 %>%
  dplyr::reframe(timing_above_threshold(MEDI, Datetime, "above", 250, as.df = TRUE))

# Below threshold
dataset1 %>%
  dplyr::reframe(timing_above_threshold(MEDI, Datetime, "below", 10, as.df = TRUE))

# Input = HMS -> Output = HMS
dataset1 %>%
  dplyr::reframe(timing_above_threshold(MEDI, hms::as_hms(Datetime), "above", 250, as.df = TRUE))

LightLogR documentation built on June 10, 2025, 5:12 p.m.